Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPY16_RS03330 Genome accession   NZ_CP046832
Coordinates   676574..678262 (-) Length   562 a.a.
NCBI ID   WP_158104985.1    Uniprot ID   -
Organism   Vibrio vulnificus strain 06-2410     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 671574..683262
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY16_RS03300 rplS 672136..672489 (+) 354 WP_011079544.1 50S ribosomal protein L19 -
  GPY16_RS03305 yacG 672697..672891 (-) 195 WP_039536083.1 DNA gyrase inhibitor YacG -
  GPY16_RS03310 zapD 672954..673694 (-) 741 WP_017421189.1 cell division protein ZapD -
  GPY16_RS03315 coaE 673727..674335 (-) 609 WP_039536087.1 dephospho-CoA kinase -
  GPY16_RS03320 pilD 674337..675206 (-) 870 WP_038941424.1 A24 family peptidase Machinery gene
  GPY16_RS03325 pilC 675300..676526 (-) 1227 WP_061058909.1 type II secretion system F family protein Machinery gene
  GPY16_RS03330 pilB 676574..678262 (-) 1689 WP_158104985.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY16_RS03335 pilA 678266..678703 (-) 438 WP_038941421.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  GPY16_RS03340 nadC 678926..679813 (-) 888 WP_072600771.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPY16_RS03345 ampD 679906..680478 (+) 573 WP_102982150.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPY16_RS03350 pdhR 680867..681634 (+) 768 WP_011079554.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62373.34 Da        Isoelectric Point: 5.8436

>NTDB_id=408591 GPY16_RS03330 WP_158104985.1 676574..678262(-) (pilB) [Vibrio vulnificus strain 06-2410]
MQSNLATILRQANQLSLTQEQACRETTQASGVTAPEALLQLGFFQPDELTEKLSAIFGLPRTDLNQYDYQELCNQLGLRE
LITRHQALPLQKSNAGLILAVADPSNVQAEDDFRFATGVQVEIVLADCQDLQAAIRRLYGKSIKQSQGSGLKEIHQDELA
NLVEVSDDEVESIEDLSQDESPVSRFINQILLDAVRKGASDIHFEPYENQYRVRLRCDGILVEVQQPPSHLSRRLSARIK
ILSKLDIAERRLPQDGRIKLRLNQETAIDMRVSTLPTLFGEKIVLRLLDSSSNSLDIDKLGYNPQQKQLYLDALRKPQGM
ILMTGPTGSGKTVSLYTGLSLLNRPEVNISTAEDPVEINLPGINQVQVKPKIGFGFAEALRSFLRQDPDIVMVGEIRDLE
TAEIAVKAAQTGHLVLSTLHTNSAAETIVRLSNMGIASFNLASSLSLIIAQRLARRLCSHCKQPHPYNATFELLGLKADD
LIYQADKQGCHHCTHGYSGRVGIYEVMPFNEQLAEAIVKGASVQSLEMLARQKGMMTLKDSGLEKLKQGITSLEELQRVL
YL

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=408591 GPY16_RS03330 WP_158104985.1 676574..678262(-) (pilB) [Vibrio vulnificus strain 06-2410]
GTGCAATCCAATCTTGCCACAATTCTTCGTCAGGCCAATCAACTTAGCCTAACGCAAGAACAAGCGTGTCGAGAGACAAC
ACAAGCTTCCGGTGTCACAGCACCGGAAGCTTTGTTGCAACTGGGCTTTTTTCAGCCAGATGAACTAACCGAAAAGCTAA
GTGCGATTTTTGGCTTACCACGCACAGACCTCAACCAATATGACTACCAAGAGCTGTGTAATCAACTTGGGTTACGTGAG
CTGATCACCCGTCACCAAGCGCTGCCACTGCAAAAAAGCAACGCTGGTTTAATACTCGCGGTTGCAGACCCGAGCAATGT
TCAAGCTGAAGATGATTTCCGTTTTGCCACAGGCGTGCAGGTGGAGATTGTTTTAGCCGATTGCCAAGATCTTCAAGCAG
CAATTCGCAGACTCTATGGAAAGAGCATCAAACAGAGCCAAGGCTCTGGATTAAAAGAGATTCACCAAGATGAGCTGGCG
AATTTGGTCGAGGTTTCAGATGACGAAGTCGAGTCCATTGAAGACTTAAGCCAAGATGAATCCCCCGTTAGCCGCTTTAT
CAACCAAATTCTGCTTGATGCAGTGCGCAAAGGCGCGTCCGATATTCATTTTGAACCGTACGAAAACCAGTACCGCGTGC
GTTTACGTTGCGATGGCATTTTGGTGGAAGTGCAGCAGCCTCCAAGCCATTTAAGCCGCCGTTTATCCGCGAGGATCAAA
ATCCTCTCCAAGCTGGATATTGCGGAAAGGCGTCTGCCACAAGATGGACGCATTAAGCTACGCCTTAACCAAGAAACCGC
GATTGATATGCGCGTTTCCACCTTACCCACGCTGTTTGGTGAAAAAATTGTGCTGCGACTTCTCGACAGTTCGAGTAACA
GCTTAGATATCGACAAGTTAGGCTACAACCCGCAACAAAAGCAGCTCTACCTCGATGCCCTGCGCAAACCGCAAGGGATG
ATTTTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTATCTCTGTACACGGGCTTGAGTTTGCTCAACCGACCTGAAGT
GAATATCTCCACCGCGGAAGACCCGGTCGAAATTAACCTCCCGGGAATCAACCAAGTGCAAGTGAAACCCAAAATTGGTT
TTGGTTTTGCAGAAGCATTGCGTTCTTTTCTCCGTCAAGACCCGGATATCGTCATGGTGGGGGAAATTCGAGATTTGGAA
ACCGCCGAGATAGCCGTCAAAGCAGCCCAAACCGGCCACCTTGTGCTATCCACCCTACATACCAACTCCGCTGCCGAAAC
CATTGTTCGCCTATCTAACATGGGGATCGCCAGCTTTAACTTGGCTTCATCCTTGAGTTTGATCATCGCTCAGCGTCTTG
CTCGTCGGTTATGCAGCCATTGCAAGCAACCGCATCCATACAACGCAACATTTGAGTTACTCGGCCTAAAAGCTGACGAC
TTGATTTATCAAGCCGATAAACAGGGTTGCCATCATTGTACTCATGGTTATTCCGGTCGTGTCGGTATATACGAAGTCAT
GCCTTTTAATGAGCAGCTAGCAGAGGCGATCGTGAAAGGCGCCTCGGTACAAAGCTTGGAGATGCTTGCTCGGCAAAAAG
GCATGATGACACTCAAAGATTCCGGCCTTGAAAAACTCAAACAAGGCATCACTAGCTTAGAAGAGCTGCAACGCGTCCTC
TATTTGTAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(38-141)

Type II/IV secretion system protein (T2SSE)

(189-456)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  pilB Vibrio campbellii strain DS40M4

75.979

100

0.76
  pilB Vibrio parahaemolyticus RIMD 2210633

75.445

100

0.754
  pilB Vibrio cholerae strain A1552

74.245

100

0.744
  pilB Legionella pneumophila strain ERS1305867

53.411

91.281

0.488
  pilB Acinetobacter baumannii D1279779

51.341

92.883

0.477
  pilB Acinetobacter baylyi ADP1

50

92.883

0.464
  pilF Neisseria gonorrhoeae MS11

45.133

100

0.454
  pilF Thermus thermophilus HB27

40.789

94.662

0.386
  pilB/pilB1 Synechocystis sp. PCC 6803

37.063

100

0.377
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.868

94.306

0.367
  pilB Haemophilus influenzae Rd KW20

41.942

86.121

0.361

Multiple sequence alignment